Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 178 of 427
Found at i:49323327 original size:29 final size:29
Alignment explanation
Indices: 49323261--49323317 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
49323251 GATTCAAAGA
*
49323261 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
49323290 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
49323318 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:49327966 original size:17 final size:16
Alignment explanation
Indices: 49327907--49327966 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
49327897 GAGACAGCAA
* *
49327907 CCATACATGCATTTAAG
1 CCATTCATGCATTT-AT
49327924 CCATTCATGCATTCTAT
1 CCATTCATGCATT-TAT
*
49327941 -CATCCCATGCATTTGAT
1 CCAT-TCATGCATTT-AT
49327958 CCATTCATG
1 CCATTCATG
49327967 GACTAGCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.11
17 27 0.77
18 4 0.11
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (16 bp):
CCATTCATGCATTTAT
Found at i:49328397 original size:30 final size:30
Alignment explanation
Indices: 49328363--49328459 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49328353 TAAACTAAAA
*
49328363 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
49328393 TGAGCTGAGGTTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
*
49328423 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTGAGCT-AAAGT
49328453 TGAGCTA
1 TGAGCTA
49328460 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:49332482 original size:12 final size:11
Alignment explanation
Indices: 49332465--49332495 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
49332455 TACAAGTTTA
49332465 AAAAAAAATCTG
1 AAAAAAAATC-G
49332477 AAAAAAAATCG
1 AAAAAAAATCG
49332488 AAAAAAAA
1 AAAAAAAA
49332496 GTGATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:49342695 original size:30 final size:30
Alignment explanation
Indices: 49342661--49342756 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
49342651 TAAACTAAAA
49342661 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAA-T
* * * * *
49342691 TGAGCTGAGATTAAACTCCTAAGCTGAAAT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAAT
*
49342721 TGAGCTAAGGTTTAGCTCGTGA-CTG-AAT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAAT
49342749 ATGAGCTA
1 -TGAGCTA
49342757 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.06
29 10 0.19
30 37 0.70
31 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAAT
Found at i:49342956 original size:18 final size:18
Alignment explanation
Indices: 49342929--49342965 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49342919 TATCACAATG
* *
49342929 TCTTTTTCAATTTCTTTT
1 TCTTTGTCAATCTCTTTT
49342947 TCTTTGTCAATCTCTTTT
1 TCTTTGTCAATCTCTTTT
49342965 T
1 T
49342966 GCTCTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.03, T:0.68
Consensus pattern (18 bp):
TCTTTGTCAATCTCTTTT
Found at i:49343116 original size:14 final size:15
Alignment explanation
Indices: 49343074--49343118 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
49343064 TTTTATTGCT
*
49343074 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
49343089 TCTCCTTTTGCTTTTCA
1 TCT-CTTTT-CTTTTCA
49343106 TCT-TTTTCTTTTC
1 TCTCTTTTCTTTTC
49343119 TCGTCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 5 0.19
17 9 0.33
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:49343680 original size:30 final size:31
Alignment explanation
Indices: 49343646--49343742 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
49343636 AGCTCACTCC
*
49343646 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
49343676 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
49343706 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
49343736 TAGCTCA
1 TAGCTCA
49343743 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:49346326 original size:20 final size:19
Alignment explanation
Indices: 49346293--49346340 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
49346283 ACATTCTTGT
49346293 AAAGAGAAAAC-AAAGAAAGA
1 AAAGA-AAAACAAAAG-AAGA
49346313 AAAGAAAAAGCAAAAGAAGA
1 AAAGAAAAA-CAAAAGAAGA
49346333 AAAGAAAA
1 AAAGAAAA
49346341 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAGAAAAACAAAAGAAGA
Found at i:49346330 original size:21 final size:20
Alignment explanation
Indices: 49346304--49346358 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
49346294 AAGAGAAAAC
49346304 AAAGAAAGAAAAGAAAAAGCA
1 AAAGAAAGAAAAGAAAAAG-A
*
49346325 AAAG-AAGAAAAGAAAATGA
1 AAAGAAAGAAAAGAAAAAGA
*
49346344 AATAAAAAGAAAAGA
1 AA-AGAAAGAAAAGA
49346359 GAGGCAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 13 0.43
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAGAAAGAAAAGAAAAAGA
Found at i:49346437 original size:11 final size:12
Alignment explanation
Indices: 49346405--49346435 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49346395 CTTGAGAGAA
49346405 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49346417 TTGAAAAAGCCT
1 TTGAAAAAGCCT
49346429 TTGAAAA
1 TTGAAAA
49346436 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:49346446 original size:12 final size:12
Alignment explanation
Indices: 49346438--49346462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49346428 TTTGAAAAGC
49346438 AAAAAGAAAATG
1 AAAAAGAAAATG
49346450 AAAAAGAAAATG
1 AAAAAGAAAATG
49346462 A
1 A
49346463 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:49346459 original size:18 final size:18
Alignment explanation
Indices: 49346432--49346487 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
49346422 AAAGCCTTTG
*
49346432 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
49346451 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
*
49346469 AAAAGAGAATGAAAA-GA
1 AAAAGAAAATGAAAATGA
49346486 AA
1 AA
49346488 TTTGAGAGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:49346472 original size:30 final size:30
Alignment explanation
Indices: 49346438--49346518 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
49346428 TTTGAAAAGC
**
49346438 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATG-AAAAGAAATATGAGAGAG
* *
49346468 AAAAAGAGAATGAAAAGAAATTTGAGAGAG
1 AAAAAGAAAATGAAAAGAAATATGAGAGAG
**
49346498 AAAAAGAAGTTGAAAAGAAAT
1 AAAAAGAAAATGAAAAGAAAT
49346519 TGAAAAGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.19
30 35 0.81
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAGAAATATGAGAGAG
Found at i:49346515 original size:11 final size:11
Alignment explanation
Indices: 49346499--49346550 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
49346489 TTGAGAGAGA
*
49346499 AAAAGAAGTTG
1 AAAAGAAATTG
49346510 AAAAGAAATTG
1 AAAAGAAATTG
*
49346521 AAAAGAGATTAAAG
1 AAAAGAAATT---G
49346535 AGAAAGAAATTG
1 A-AAAGAAATTG
49346547 AAAA
1 AAAA
49346551 AAGAAACGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
11 22 0.65
12 2 0.06
14 2 0.06
15 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.15
Consensus pattern (11 bp):
AAAAGAAATTG
Found at i:49348680 original size:30 final size:31
Alignment explanation
Indices: 49348646--49348742 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
49348636 AGCTCACTCC
*
49348646 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
49348676 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
49348706 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
49348736 TAGCTCA
1 TAGCTCA
49348743 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:49360315 original size:19 final size:19
Alignment explanation
Indices: 49360269--49360322 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
49360259 CATAAATCAC
**
49360269 TTTTTTTTCGATTTTTTTTA
1 TTTTTTTT-GATTTTTTCGA
49360289 TTTTTTTTGATTTTTTCGA
1 TTTTTTTTGATTTTTTCGA
49360308 TTTTTTTT-ATTTTTT
1 TTTTTTTTGATTTTTT
49360323 AACTTGTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.22
19 17 0.53
20 8 0.25
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTTTTTGATTTTTTCGA
Found at i:49360319 original size:9 final size:9
Alignment explanation
Indices: 49360269--49360322 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
49360259 CATAAATCAC
49360269 TTTTTTTTCGA
1 TTTTTTTT--A
49360280 TTTTTTTTA
1 TTTTTTTTA
49360289 TTTTTTTTGA
1 TTTTTTTT-A
**
49360299 TTTTTTCGA
1 TTTTTTTTA
49360308 TTTTTTTTA
1 TTTTTTTTA
49360317 TTTTTT
1 TTTTTT
49360323 AACTTGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 23 0.61
10 7 0.18
11 8 0.21
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:49365263 original size:26 final size:26
Alignment explanation
Indices: 49365234--49365341 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49365224 TGGTACAAAT
49365234 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49365260 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49365286 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49365312 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49365338 TGAT
1 TGAT
49365342 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49368037 original size:20 final size:20
Alignment explanation
Indices: 49368014--49368061 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49368004 AGCTCCGTCC
49368014 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
49368034 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
49368054 AGCTCAAC
1 AGCTCAAC
49368062 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:49374438 original size:10 final size:10
Alignment explanation
Indices: 49374404--49374437 Score: 54
Period size: 9 Copynumber: 3.6 Consensus size: 10
49374394 AGTTCATAAG
49374404 AAAAAATTCA
1 AAAAAATTCA
49374414 AAAAAA-TCA
1 AAAAAATTCA
49374423 AAAAAATT-A
1 AAAAAATTCA
49374432 AAAAAA
1 AAAAAA
49374438 AAGCGTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:49375368 original size:15 final size:15
Alignment explanation
Indices: 49375319--49375360 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49375309 ATCTTCTTGT
*
49375319 AAAAAGAAAACG-AG
1 AAAAAGAAAAAGAAG
*
49375333 -AAAAGCAAAAGAAG
1 AAAAAGAAAAAGAAG
49375347 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
49375361 ATAAAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAG
Found at i:49375477 original size:12 final size:12
Alignment explanation
Indices: 49375457--49375500 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
49375447 GAAAAAGAAC
*
49375457 AAAAAGAGAGTG
1 AAAAAGAGAATG
* *
49375469 AAAATGAGATTG
1 AAAAAGAGAATG
49375481 AAAAAGAGAATG
1 AAAAAGAGAATG
49375493 AAAAAGAG
1 AAAAAGAG
49375501 TTTGAGAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.11
Consensus pattern (12 bp):
AAAAAGAGAATG
Found at i:49375488 original size:24 final size:24
Alignment explanation
Indices: 49375457--49375505 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49375447 GAAAAAGAAC
* *
49375457 AAAAAGAGAGTGAAAATGAGATTG
1 AAAAAGAGAATGAAAAAGAGATTG
*
49375481 AAAAAGAGAATGAAAAAGAGTTTG
1 AAAAAGAGAATGAAAAAGAGATTG
49375505 A
1 A
49375506 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (24 bp):
AAAAAGAGAATGAAAAAGAGATTG
Found at i:49378457 original size:13 final size:13
Alignment explanation
Indices: 49378439--49378463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49378429 TGGTCATCAT
49378439 GGTGTGAACACAA
1 GGTGTGAACACAA
49378452 GGTGTGAACACA
1 GGTGTGAACACA
49378464 TGATCAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:49378958 original size:30 final size:30
Alignment explanation
Indices: 49378873--49378969 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
49378863 TAAACTAAAA
* * *
49378873 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTGAAGT
* * * * *
49378903 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCATGAGCTGAAGT
*
49378933 TGAGCTAAGGTTTAGCTCATGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCATGAGCTGAAGT
49378962 ATGAGCTA
1 -TGAGCTA
49378970 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCATGAGCTGAAGT
Found at i:49380671 original size:30 final size:30
Alignment explanation
Indices: 49380637--49380733 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
49380627 TAAACTAAAA
49380637 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
49380667 TGAGCTGAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
49380697 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49380727 TGAGCTA
1 TGAGCTA
49380734 GGAGTGACCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.83
31 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49383832 original size:10 final size:10
Alignment explanation
Indices: 49383817--49383843 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
49383807 TAAGTTGAAG
49383817 TTGAGCTGAT
1 TTGAGCTGAT
49383827 TTGAGCTGAT
1 TTGAGCTGAT
49383837 TTGAGCT
1 TTGAGCT
49383844 TGAAAGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:49384443 original size:30 final size:28
Alignment explanation
Indices: 49384406--49384489 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 28
49384396 TTCTTTTGTT
*
49384406 TCAATTTCTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTCAT-TTCTTTTTCAATC
*
49384435 TCAAATTTCTTTTCGTTCTCTTTTTCAATC
1 TC-AATTTCTTTTCATT-TCTTTTTCAATC
*
49384465 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTC-TTTTCA-TTTCTTTTT
49384490 GCTTTTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 8 0.17
30 37 0.79
31 2 0.04
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.63
Consensus pattern (28 bp):
TCAATTTCTTTTCATTTCTTTTTCAATC
Found at i:49384489 original size:18 final size:18
Alignment explanation
Indices: 49384440--49384495 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
49384430 CACTCTCAAA
* *
49384440 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
49384457 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
49384475 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
49384494 TT
1 TT
49384496 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:49384496 original size:12 final size:12
Alignment explanation
Indices: 49384465--49384489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49384455 TTTTTCAATC
49384465 TCATTTTCTTTT
1 TCATTTTCTTTT
49384477 TCATTTTCTTTT
1 TCATTTTCTTTT
49384489 T
1 T
49384490 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:49384615 original size:21 final size:20
Alignment explanation
Indices: 49384558--49384625 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
49384548 CTCTTGCCTC
* *
49384558 TCTTTTCTTTTTATTTATTTT
1 TCTTTTC-TTTTCTTTGTTTT
*
49384579 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTG-TTTT
49384600 TCTTTTCTTTTCTTTGTTTT
1 TCTTTTCTTTTCTTTGTTTT
49384620 CTCTTT
1 -TCTTT
49384626 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 25 0.64
22 4 0.10
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (20 bp):
TCTTTTCTTTTCTTTGTTTT
Found at i:49387083 original size:13 final size:13
Alignment explanation
Indices: 49387065--49387089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49387055 TGGTCATCAT
49387065 GGTGTGAACACAA
1 GGTGTGAACACAA
49387078 GGTGTGAACACA
1 GGTGTGAACACA
49387090 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:49387591 original size:30 final size:30
Alignment explanation
Indices: 49387497--49387584 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
49387487 TAAACTAAAA
* *
49387497 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * ** * * *
49387527 TGAGCTGAGATCAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
49387557 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
49387585 TATGAGCAAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:49388176 original size:13 final size:13
Alignment explanation
Indices: 49388158--49388182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49388148 TGGTCATCAT
49388158 GGTGTGAACACAA
1 GGTGTGAACACAA
49388171 GGTGTGAACACA
1 GGTGTGAACACA
49388183 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:49390972 original size:10 final size:10
Alignment explanation
Indices: 49390957--49390991 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49390947 TTTACCACGC
49390957 TTTTTTTAAT
1 TTTTTTTAAT
*
49390967 TTTTTTTGAT
1 TTTTTTTAAT
*
49390977 TTTTTTGAAT
1 TTTTTTTAAT
49390987 TTTTT
1 TTTTT
49390992 CTTATGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:49397393 original size:10 final size:10
Alignment explanation
Indices: 49397380--49397414 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49397370 AAGCTCGGTT
49397380 GAGCTCAAAC
1 GAGCTCAAAC
*
49397390 GAGCTGAAAC
1 GAGCTCAAAC
*
49397400 GAGCTCAAAT
1 GAGCTCAAAC
49397410 GAGCT
1 GAGCT
49397415 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:49397423 original size:20 final size:20
Alignment explanation
Indices: 49397377--49397424 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49397367 AGTAAGCTCG
49397377 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
49397397 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
49397417 GTTGAGCT
1 GTTGAGCT
49397425 GGACGAAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:49400789 original size:18 final size:19
Alignment explanation
Indices: 49400766--49400804 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49400756 TTTATCTCAA
*
49400766 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
49400784 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
49400803 TT
1 TT
49400805 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:49400820 original size:48 final size:49
Alignment explanation
Indices: 49400768--49400871 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
49400758 TATCTCAATT
* * *
49400768 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
49400816 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
49400864 TCTTTTTC
1 TCTTTTTC
49400872 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:49400843 original size:18 final size:18
Alignment explanation
Indices: 49400822--49400871 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
49400812 AAACTCTTTT
49400822 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
49400840 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
49400858 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
49400872 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:49400861 original size:24 final size:24
Alignment explanation
Indices: 49400797--49400878 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
49400787 CTTGTTCACA
*
49400797 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
49400821 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
49400845 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
49400869 TTCTTTTTCT
1 TTCTTTTTCT
49400879 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:49400930 original size:42 final size:42
Alignment explanation
Indices: 49400875--49400969 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
49400865 CTTTTTCTTT
* * *
49400875 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
49400916 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
49400958 TCCTCTCATTTT
1 TTCTCTCATTTT
49400970 TTCTCATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.14
42 42 0.86
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:49400949 original size:21 final size:21
Alignment explanation
Indices: 49400882--49400949 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
49400872 TTTTTCTTTC
*
49400882 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
49400903 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
49400923 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
49400945 ATTTC
1 ATTTC
49400950 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:49403363 original size:20 final size:20
Alignment explanation
Indices: 49403317--49403364 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
49403307 AGTAAGCTTG
49403317 GTTGAGCTCAAACAAGCTGA
1 GTTGAGCTCAAACAAGCTGA
*** **
49403337 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACAAGCTGA
49403357 GTTGAGCT
1 GTTGAGCT
49403365 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACAAGCTGA
Found at i:49405172 original size:28 final size:27
Alignment explanation
Indices: 49405109--49405178 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49405099 ATAGTGAGTC
49405109 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49405136 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49405164 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49405179 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49412988 original size:28 final size:27
Alignment explanation
Indices: 49412925--49412994 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49412915 ATAGTGAGTC
49412925 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49412952 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49412980 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49412995 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49416828 original size:26 final size:26
Alignment explanation
Indices: 49416797--49416904 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49416787 TGAAATGCCC
*
49416797 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49416823 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
49416849 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
49416875 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49416901 ATCA
1 ATCA
49416905 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49420858 original size:15 final size:15
Alignment explanation
Indices: 49420838--49420885 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49420828 TCAAAGATGG
49420838 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
49420853 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
49420867 GTTTATGGATATAAA
1 GTTTATGGATATGAA
49420882 GTTT
1 GTTT
49420886 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49420872 original size:14 final size:14
Alignment explanation
Indices: 49420832--49420875 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49420822 AAGGATTCAA
49420832 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
49420846 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
49420861 AGATGGGTTTATGG
1 AGATGGGTTTATGG
49420875 A
1 A
49420876 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:49420901 original size:29 final size:29
Alignment explanation
Indices: 49420832--49420891 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
49420822 AAGGATTCAA
*
49420832 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
49420861 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
49420890 AG
1 AG
49420892 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:49421374 original size:15 final size:15
Alignment explanation
Indices: 49421354--49421401 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49421344 TCAAAGATGG
49421354 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
49421369 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
49421383 GTTTATGGATATAAA
1 GTTTATGGATATGAA
49421398 GTTT
1 GTTT
49421402 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49421388 original size:14 final size:14
Alignment explanation
Indices: 49421348--49421391 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49421338 AAGGATTCAA
49421348 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
49421362 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
49421377 AGATGGGTTTATGG
1 AGATGGGTTTATGG
49421391 A
1 A
49421392 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:49421392 original size:516 final size:516
Alignment explanation
Indices: 49420420--49421449 Score: 1979
Period size: 516 Copynumber: 2.0 Consensus size: 516
49420410 AAGCCACTTT
49420420 GGGTTATTCTAGATGGGATCAGAGTAGACCACCTATGAGCTCGAGAGCTACCTCAGTAGCTAGTG
1 GGGTTATTCTAGATGGGATCAGAGTAGACCACCTATGAGCTCGAGAGCTACCTCAGTAGCTAGTG
*
49420485 TGGGTAATGTCAGATCAAATCAACCCGAGTGTAAACATTGCAGCAAATGACATCCTGATAGTTAC
66 TGGGTAATGTCAGATCAAATCAACCCGAGTGTAAACATTGCAGCAAATGACATCCCGATAGTTAC
*
49420550 AGATTGCATGATCAGCTAGTTTTAAATGTGGATCAATGGATCATTATATTCGTGATTGCCTAGTG
131 AGATTGCATGATCAGCCAGTTTTAAATGTGGATCAATGGATCATTATATTCGTGATTGCCTAGTG
*
49420615 TTGGTTGAAGAAAATCCAGTGCAGAATACGAGATTGAGTAATACTGCAGCTTGAGGTAGACCACC
196 TTGGTTGAAGAAAATCCAGTGCAAAATACGAGATTGAGTAATACTGCAGCTTGAGGTAGACCACC
49420680 CAGAAATGCGGGTAACGTGATGATACGATCCGCCTCGGGGTGAGTCAAGTCGTATGTGAGTTTGC
261 CAGAAATGCGGGTAACGTGATGATACGATCCGCCTCGGGGTGAGTCAAGTCGTATGTGAGTTTGC
* *
49420745 CCGATCGTCTACGAAGAAGTAGGGTTTGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCG
326 CCGATCGTCTACGAAGAAGTAGCGTTCGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCG
49420810 GAATCTATGTAAAAGGATTCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGG
391 GAATCTATGTAAAAGGATTCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGG
49420875 ATATAAAGTTTTTGTAGGTTTGGTTATAATGAAACGAAAAGATGGAATGGAATGAAAATTC
456 ATATAAAGTTTTTGTAGGTTTGGTTATAATGAAACGAAAAGATGGAATGGAATGAAAATTC
49420936 GGGTTATTCTAGATGGGATCAGAGTAGACCACCTATGAGCTCGAGAGCTACCTCAGTAGCTAGTG
1 GGGTTATTCTAGATGGGATCAGAGTAGACCACCTATGAGCTCGAGAGCTACCTCAGTAGCTAGTG
49421001 TGGGTAATGTCAGATCAAATCAACCCGAGTGTAAACATTGCAGCAAATGACATCCCGATAGTTAC
66 TGGGTAATGTCAGATCAAATCAACCCGAGTGTAAACATTGCAGCAAATGACATCCCGATAGTTAC
49421066 AGATTGCATGATCAGCCAGTTTTAAATGTGGATCAATGGATCATTATATTCGTGATTGCCTAGTG
131 AGATTGCATGATCAGCCAGTTTTAAATGTGGATCAATGGATCATTATATTCGTGATTGCCTAGTG
49421131 TTGGTTGAAGAAAATCCAGTGCAAAATACGAGATTGAGTAATACTGCAGCTTGAGGTAGACCACC
196 TTGGTTGAAGAAAATCCAGTGCAAAATACGAGATTGAGTAATACTGCAGCTTGAGGTAGACCACC
* *
49421196 TAGAAATGCGGGTAACGTGATGATACGATCCGCCTCGGGGTGAGTCGAGTCGTATGTGAGTTTGC
261 CAGAAATGCGGGTAACGTGATGATACGATCCGCCTCGGGGTGAGTCAAGTCGTATGTGAGTTTGC
*
49421261 CCGATCGTCTACGAAGAAGTAGCGTTCGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGTG
326 CCGATCGTCTACGAAGAAGTAGCGTTCGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCG
49421326 GAATCTATGTAAAAGGATTCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGG
391 GAATCTATGTAAAAGGATTCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGG
*
49421391 ATATAAAGTTTTTGTAGGTTTGGTTATAATGAAATGAAAAGATGGAATGGAATGAAAAT
456 ATATAAAGTTTTTGTAGGTTTGGTTATAATGAAACGAAAAGATGGAATGGAATGAAAAT
49421450 GAAAATGATC
Statistics
Matches: 505, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
516 505 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (516 bp):
GGGTTATTCTAGATGGGATCAGAGTAGACCACCTATGAGCTCGAGAGCTACCTCAGTAGCTAGTG
TGGGTAATGTCAGATCAAATCAACCCGAGTGTAAACATTGCAGCAAATGACATCCCGATAGTTAC
AGATTGCATGATCAGCCAGTTTTAAATGTGGATCAATGGATCATTATATTCGTGATTGCCTAGTG
TTGGTTGAAGAAAATCCAGTGCAAAATACGAGATTGAGTAATACTGCAGCTTGAGGTAGACCACC
CAGAAATGCGGGTAACGTGATGATACGATCCGCCTCGGGGTGAGTCAAGTCGTATGTGAGTTTGC
CCGATCGTCTACGAAGAAGTAGCGTTCGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCG
GAATCTATGTAAAAGGATTCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGG
ATATAAAGTTTTTGTAGGTTTGGTTATAATGAAACGAAAAGATGGAATGGAATGAAAATTC
Found at i:49421417 original size:29 final size:29
Alignment explanation
Indices: 49421348--49421407 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
49421338 AAGGATTCAA
*
49421348 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
49421377 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
49421406 AG
1 AG
49421408 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:49425613 original size:30 final size:30
Alignment explanation
Indices: 49425579--49425676 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
49425569 AGCTCACTCC
49425579 TAGCTCATATTCAGTTCACGAGCTAAACCT
1 TAGCTCATATTCAGTTCACGAGCTAAACCT
** * * * *
49425609 TAGCTCAGCTTCAGCTT-AGGAGTTTAATCT
1 TAGCTCATATTCAG-TTCACGAGCTAAACCT
* * * *
49425639 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGTTCACGAGCTAAACCT
49425669 TAGCTCAT
1 TAGCTCAT
49425677 TTTAGTTTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
29 1 0.02
30 46 0.94
31 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGTTCACGAGCTAAACCT
Found at i:49428263 original size:14 final size:15
Alignment explanation
Indices: 49428246--49428290 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
49428236 AAGAAGACGA
49428246 GAAAAGAAAA-AGAT
1 GAAAAGAAAAGAGAT
49428260 GAAAAGCAAAAGGAGAT
1 GAAAAG-AAAA-GAGAT
*
49428277 CAAAAGAAAAGAGA
1 GAAAAGAAAAGAGA
49428291 AGCAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 8 0.30
16 4 0.15
17 9 0.33
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (15 bp):
GAAAAGAAAAGAGAT
Found at i:49428422 original size:18 final size:18
Alignment explanation
Indices: 49428399--49428435 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49428389 GGAAAAGAGC
* *
49428399 AAAAAGATATTGACAAAG
1 AAAAAGAAATTGAAAAAG
49428417 AAAAAGAAATTGAAAAAG
1 AAAAAGAAATTGAAAAAG
49428435 A
1 A
49428436 CATTGTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.14
Consensus pattern (18 bp):
AAAAAGAAATTGAAAAAG
Found at i:49428642 original size:30 final size:30
Alignment explanation
Indices: 49428608--49428710 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
49428598 AGCTCACTCC
*
49428608 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTTAGCTCACGAGCTAAACCT
* * * * *
49428638 TAGCTCAGT-TTTAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTTAGCTCACGAGCTAAACCT
* *
49428668 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
49428698 TAGCTCAT-TTTAG
1 TAGCTCATATTTAG
49428711 TTTAACTCGA
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
29 5 0.09
30 50 0.89
31 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (30 bp):
TAGCTCATATTTAGCTCACGAGCTAAACCT
Found at i:49429989 original size:11 final size:10
Alignment explanation
Indices: 49429961--49430022 Score: 56
Period size: 11 Copynumber: 5.9 Consensus size: 10
49429951 CAATGGTCAA
49429961 AATTTTTTTT
1 AATTTTTTTT
49429971 AAGGTTTTTTTCT
1 AA--TTTTTTT-T
49429984 AA-TTTTTTT
1 AATTTTTTTT
49429993 AACTTTTTTTT
1 AA-TTTTTTTT
49430004 -ATTTTTTTT
1 AATTTTTTTT
*
49430013 CGATTTTTTT
1 -AATTTTTTT
49430023 GAAACTTACT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
9 11 0.24
10 9 0.20
11 15 0.33
12 7 0.16
13 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:49429992 original size:22 final size:20
Alignment explanation
Indices: 49429964--49430011 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
49429954 TGGTCAAAAT
*
49429964 TTTTTTTAAGGTTTTTTTCTAA
1 TTTTTTTAA-CTTTTTTT-TAA
49429986 TTTTTTTAACTTTTTTTT-A
1 TTTTTTTAACTTTTTTTTAA
49430005 TTTTTTT
1 TTTTTTT
49430012 TCGATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 7 0.28
22 9 0.36
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTTTTTAACTTTTTTTTAA
Found at i:49433329 original size:30 final size:29
Alignment explanation
Indices: 49433285--49433342 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
49433275 AAAGATAACA
49433285 AGAAAACCGAATAAAGAAA-TCCAAGATAG
1 AGAAAACCGAATAAAGAAACT-CAAGATAG
*
49433314 AGAAACCCAGAATAAAGAAACTCAAGATA
1 AGAAAACC-GAATAAAGAAACTCAAGATA
49433343 CGATACTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 18 0.69
31 1 0.04
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACTCAAGATAG
Found at i:49433332 original size:15 final size:15
Alignment explanation
Indices: 49433284--49433334 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
49433274 TAAAGATAAC
*
49433284 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
49433298 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
49433313 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
49433328 AAGAAAC
1 AAGAAAC
49433335 TCAAGATACG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.30
15 20 0.67
16 1 0.03
ACGTcount: A:0.61, C:0.16, G:0.16, T:0.08
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:49434967 original size:30 final size:30
Alignment explanation
Indices: 49434872--49434968 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
49434862 AGCTCACTCC
*
49434872 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
49434902 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
49434932 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
49434962 TAGCTCA
1 TAGCTCA
49434969 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:49437521 original size:21 final size:20
Alignment explanation
Indices: 49437487--49437554 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
49437477 ACATTTTTGT
49437487 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
49437508 AAAGAAAAAGCAAAATAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
49437529 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
49437550 AAAGA
1 AAAGA
49437555 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:49437529 original size:15 final size:14
Alignment explanation
Indices: 49437509--49437552 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
49437499 AAGAAAAGAA
49437509 AAGAAAAAGCAAAAT
1 AAGAAAAAG-AAAAT
49437524 AAGAAAAAGAAAAT
1 AAGAAAAAGAAAAT
*
49437538 GAAATAAAAAGAAAA
1 --AAGAAAAAGAAAA
49437553 GAGAGGCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 9 0.35
16 12 0.46
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGAAAAAGAAAAT
Found at i:49437631 original size:11 final size:12
Alignment explanation
Indices: 49437601--49437631 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49437591 TTGAGAGAAC
49437601 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
49437613 TTGAAAAATCCT
1 TTGAAAAAGCCT
49437625 TTGAAAA
1 TTGAAAA
49437632 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:49437668 original size:30 final size:30
Alignment explanation
Indices: 49437634--49437701 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
49437624 TTTGAAAAGC
* *
49437634 AAAAAGAAAATGCAAAAGAAA-ATGAGATTG
1 AAAAAGAAAACG-AAAAGAAATATGAGAGTG
* *
49437664 AAAAAGAGAACGAAAAGAAATTTGAGAGTG
1 AAAAAGAAAACGAAAAGAAATATGAGAGTG
49437694 AAAAAGAA
1 AAAAAGAA
49437702 GCTAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.63, C:0.03, G:0.22, T:0.12
Consensus pattern (30 bp):
AAAAAGAAAACGAAAAGAAATATGAGAGTG
Found at i:49439850 original size:30 final size:30
Alignment explanation
Indices: 49439828--49439910 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
49439818 TCACTTTCAA
49439828 CTCACGAGCTAAACCTTAGCTCAACTTTAG
1 CTCACGAGCTAAACCTTAGCTCAACTTTAG
* * * * * *
49439858 CTTAGGAGTTTAGCCTCAGCTCAACTTTAG
1 CTCACGAGCTAAACCTTAGCTCAACTTTAG
*
49439888 CTCACGAGCTAAAGCTTAGCTCA
1 CTCACGAGCTAAACCTTAGCTCA
49439911 TTTTAGTTTA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (30 bp):
CTCACGAGCTAAACCTTAGCTCAACTTTAG
Found at i:49441965 original size:13 final size:13
Alignment explanation
Indices: 49441947--49441971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49441937 GCTGTTTAAT
49441947 TATGATTAAATGA
1 TATGATTAAATGA
49441960 TATGATTAAATG
1 TATGATTAAATG
49441972 TGTTCATGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TATGATTAAATGA
Found at i:49443500 original size:12 final size:12
Alignment explanation
Indices: 49443483--49443538 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
49443473 CTCTCTCAAA
49443483 CTCTTTTTCATT
1 CTCTTTTTCATT
49443495 CTCTTTTTCAATT
1 CTCTTTTTC-ATT
*
49443508 -TCTTTTTCAAT
1 CTCTTTTTCATT
* *
49443519 CTCATTTTCACT
1 CTCTTTTTCATT
49443531 CTCTTTTT
1 CTCTTTTT
49443539 GTTCTTTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 2 0.05
12 33 0.87
13 3 0.08
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:49443510 original size:36 final size:36
Alignment explanation
Indices: 49443470--49443538 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
49443460 TCAACTTCTT
* *
49443470 TTTCTCTCTCAAACTCTTTTTCATTCTCTTTTTCAA
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
* * *
49443506 TTTCTTTTTCAATCTCATTTTCACTCTCTTTTT
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTT
49443539 GTTCTTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.59
Consensus pattern (36 bp):
TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
Found at i:49443511 original size:24 final size:24
Alignment explanation
Indices: 49443478--49443538 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
49443468 TTTTTCTCTC
* * *
49443478 TCAAACTCTTTTTCATTCTCTTTT
1 TCAATCTCTTTTTCAATCTCATTT
*
49443502 TCAATTTCTTTTTCAATCTCATTT
1 TCAATCTCTTTTTCAATCTCATTT
*
49443526 TCACTCTCTTTTT
1 TCAATCTCTTTTT
49443539 GTTCTTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (24 bp):
TCAATCTCTTTTTCAATCTCATTT
Found at i:49443647 original size:15 final size:15
Alignment explanation
Indices: 49443629--49443670 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
49443619 TCTATTTTAT
49443629 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
*
49443644 TTCTTTTGC-TTTTC
1 TTCTTTTTCTTTTTC
*
49443658 -TCGTTTTCTTTTT
1 TTCTTTTTCTTTTT
49443671 ACAAGAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:49444569 original size:11 final size:11
Alignment explanation
Indices: 49444553--49444601 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
49444543 TTAACACACC
49444553 TTTTTTT-GAA
1 TTTTTTTCGAA
49444563 TTTTTTTCGAA
1 TTTTTTTCGAA
49444574 TTTTTTTCGAA
1 TTTTTTTCGAA
*
49444585 TTTTTTTTGAA
1 TTTTTTTCGAA
49444596 TTTTTT
1 TTTTTT
49444602 CTTTCACTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
10 7 0.19
11 30 0.81
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.71
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:49445549 original size:21 final size:20
Alignment explanation
Indices: 49445510--49445552 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
49445500 ATCAGCTCAC
49445510 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTCAGCTCGT
* *
49445530 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTCAGCTCGT
49445551 TT
1 TT
49445553 TGGCTCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGAGCTCGTTTCAGCTCGT
Found at i:49455675 original size:17 final size:18
Alignment explanation
Indices: 49455639--49455677 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
49455629 AGCAGCCAAA
49455639 AATTAATGTGTCTAAATT
1 AATTAATGTGTCTAAATT
*
49455657 AATTAATGTG-CTGAATT
1 AATTAATGTGTCTAAATT
49455674 AATT
1 AATT
49455678 TGTGTGTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (18 bp):
AATTAATGTGTCTAAATT
Found at i:49455776 original size:24 final size:24
Alignment explanation
Indices: 49455744--49455805 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
49455734 ACAGCATGCC
* *
49455744 TGGATAGATTTAATGAGCTACTGG
1 TGGACAGATTTAATGAACTACTGG
* *
49455768 TTGACAGATTTAATGAACTGCTGG
1 TGGACAGATTTAATGAACTACTGG
49455792 TGGAC-GAATTTAAT
1 TGGACAG-ATTTAAT
49455806 ATGTCCCAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.34
Consensus pattern (24 bp):
TGGACAGATTTAATGAACTACTGG
Found at i:49462174 original size:23 final size:23
Alignment explanation
Indices: 49462147--49462192 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
49462137 AAAAAATTTG
49462147 GAATACATCAATCACTTGTTATC
1 GAATACATCAATCACTTGTTATC
49462170 GAATACATCAATCACTTGTTATC
1 GAATACATCAATCACTTGTTATC
49462193 CCTTTTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
GAATACATCAATCACTTGTTATC
Found at i:49468552 original size:14 final size:14
Alignment explanation
Indices: 49468535--49468569 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49468525 AATTTATTCA
*
49468535 TACCATTTTGTTCC
1 TACCATTTCGTTCC
*
49468549 TACCCTTTCGTTCC
1 TACCATTTCGTTCC
49468563 TACCATT
1 TACCATT
49468570 CCATTCGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.34, G:0.06, T:0.46
Consensus pattern (14 bp):
TACCATTTCGTTCC
Found at i:49470482 original size:25 final size:26
Alignment explanation
Indices: 49470418--49470487 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
49470408 TCAAAGTACG
49470418 ATAGAATATGTCACAAAGGCGAGATAC
1 ATAG-ATATGTCACAAAGGCGAGATAC
*
49470445 ATA-ATACGTCACAAAGGC-A-ATAC
1 ATAGATATGTCACAAAGGCGAGATAC
*
49470468 ATAGAGTATGCCACAAAGGC
1 ATAGA-TATGTCACAAAGGC
49470488 TAGCAGAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 7 0.18
24 2 0.05
25 26 0.68
27 3 0.08
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (26 bp):
ATAGATATGTCACAAAGGCGAGATAC
Found at i:49470504 original size:20 final size:20
Alignment explanation
Indices: 49470475--49470518 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49470465 TACATAGAGT
*
49470475 ATGCCACAAAGGCTAGCAGA
1 ATGCCACAAAGGCTAACAGA
*
49470495 ATGCCGCAAAGGCTAACAGA
1 ATGCCACAAAGGCTAACAGA
49470515 ATGC
1 ATGC
49470519 GCCACCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (20 bp):
ATGCCACAAAGGCTAACAGA
Found at i:49470544 original size:22 final size:22
Alignment explanation
Indices: 49470475--49470562 Score: 58
Period size: 22 Copynumber: 4.1 Consensus size: 22
49470465 TACATAGAGT
* *
49470475 ATGCCACAAAGG-C-TAGCAGA
1 ATGCCACAAAGGCCAAATCAGA
* *
49470495 ATGCCGCAAAGG-CTAA-CAGA
1 ATGCCACAAAGGCCAAATCAGA
* * *
49470515 ATGCGCCACCAAGGCCATATTAGA
1 AT--GCCACAAAGGCCAAATCAGA
*
49470539 ATGCCATAAAGGCCAAATCAGA
1 ATGCCACAAAGGCCAAATCAGA
49470561 AT
1 AT
49470563 ATGCCATAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
20 18 0.35
21 1 0.02
22 26 0.50
23 2 0.04
24 5 0.10
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.14
Consensus pattern (22 bp):
ATGCCACAAAGGCCAAATCAGA
Found at i:49476744 original size:38 final size:38
Alignment explanation
Indices: 49476688--49476849 Score: 164
Period size: 38 Copynumber: 4.0 Consensus size: 38
49476678 ATTGATTCAT
*
49476688 TAACGTGGTGCTAAGTGGATATACCATGGTTGA-ACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTT-ATACATG
* * *
49476726 TAACCTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG
* *
49476767 ATTCATCAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 -----T-AACGTGGTGCTAAGTGGATATACCACGGTTATACATG
*
49476811 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
49476849 T
1 T
49476850 TAATTTGAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
38 63 0.62
39 2 0.02
40 2 0.02
41 2 0.02
44 2 0.02
45 3 0.03
46 1 0.01
47 27 0.26
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTATACATG
Found at i:49476801 original size:85 final size:85
Alignment explanation
Indices: 49476658--49476842 Score: 343
Period size: 85 Copynumber: 2.2 Consensus size: 85
49476648 GGTGTTACAT
* *
49476658 GATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCATGGTTGAAC
1 GATATGCCACGGTTACATATATTGATTCATCAACGTGGTGCTAAGTGGATATACCATGGTTAAAC
49476723 ATGTAACCTGGTGCTAAGTG
66 ATGTAACCTGGTGCTAAGTG
49476743 GATATGCCACGGTTACATATATTGATTCATCAACGTGGTGCTAAGTGGATATACCATGGTTAAAC
1 GATATGCCACGGTTACATATATTGATTCATCAACGTGGTGCTAAGTGGATATACCATGGTTAAAC
*
49476808 ATGTAACGTGGTGCTAAGTG
66 ATGTAACCTGGTGCTAAGTG
49476828 GATATGCCACGGTTA
1 GATATGCCACGGTTA
49476843 TACATGTTAA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
GATATGCCACGGTTACATATATTGATTCATCAACGTGGTGCTAAGTGGATATACCATGGTTAAAC
ATGTAACCTGGTGCTAAGTG
Found at i:49477103 original size:13 final size:13
Alignment explanation
Indices: 49477085--49477109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49477075 TATTTAAAAA
49477085 TTATTTTATGTGT
1 TTATTTTATGTGT
49477098 TTATTTTATGTG
1 TTATTTTATGTG
49477110 AATTTATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTATGTGT
Found at i:49480925 original size:31 final size:31
Alignment explanation
Indices: 49480887--49480947 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
49480877 TCTTTTAGAC
*
49480887 TTAGTTTCATAAGAAATATATTAGTCAGAGG
1 TTAGTTTCATAAGAAATATATCAGTCAGAGG
* *
49480918 TTAGTTTCGTTAGAAATATATCAGTCAGAG
1 TTAGTTTCATAAGAAATATATCAGTCAGAG
49480948 ATTTATGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (31 bp):
TTAGTTTCATAAGAAATATATCAGTCAGAGG
Found at i:49485177 original size:15 final size:13
Alignment explanation
Indices: 49485146--49485170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49485136 TAGTTAAAAA
49485146 TTATTTTATGTGT
1 TTATTTTATGTGT
49485159 TTATTTTATGTG
1 TTATTTTATGTG
49485171 AGTTTATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTATGTGT
Found at i:49487787 original size:10 final size:10
Alignment explanation
Indices: 49487772--49487798 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
49487762 TACTCCTTCA
49487772 AGCTCAAATC
1 AGCTCAAATC
49487782 AGCTCAAATC
1 AGCTCAAATC
49487792 AGCTCAA
1 AGCTCAA
49487799 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:49492556 original size:30 final size:30
Alignment explanation
Indices: 49492522--49492618 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
49492512 TAAACTAAAA
49492522 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
49492552 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
49492582 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49492612 TGAGCTA
1 TGAGCTA
49492619 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49494800 original size:29 final size:30
Alignment explanation
Indices: 49494731--49494811 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
49494721 CTTTTGTTTC
*
49494731 AATTTCTTTTTCA-TCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTC-TC-TTTTCAATCTCA
49494762 AATTTC-TTTTCATTCTCTTTTCAATCTC-
1 AATTTCTTTTTCATTCTCTTTTCAATCTCA
* *
49494790 ATTTTCTTTTTCATTTTCTTTT
1 AATTTCTTTTTCATTCTCTTTT
49494812 TGCTTTTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.11
29 24 0.53
30 8 0.18
31 8 0.18
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (30 bp):
AATTTCTTTTTCATTCTCTTTTCAATCTCA
Found at i:49494819 original size:12 final size:12
Alignment explanation
Indices: 49494788--49494812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49494778 CTTTTCAATC
49494788 TCATTTTCTTTT
1 TCATTTTCTTTT
49494800 TCATTTTCTTTT
1 TCATTTTCTTTT
49494812 T
1 T
49494813 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:49494891 original size:5 final size:5
Alignment explanation
Indices: 49494881--49494937 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49494871 CTCTTGCCTC
*
49494881 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
49494928 TCTTT TCTTT
1 TCTTT TCTTT
49494938 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:49494921 original size:15 final size:14
Alignment explanation
Indices: 49494881--49494937 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49494871 CTCTTGCCTC
*
49494881 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
49494896 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
49494911 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
49494928 TCTTTTCTTT
1 TCTTTTCTTT
49494938 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:49494947 original size:21 final size:20
Alignment explanation
Indices: 49494879--49494948 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
49494869 GCCTCTTGCC
49494879 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
49494902 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
49494922 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
49494942 TCTCTTT
1 TCTCTTT
49494949 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:49495878 original size:15 final size:14
Alignment explanation
Indices: 49495854--49495903 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
49495844 CATTAAACAC
49495854 TTTTTTTTTCAGAT
1 TTTTTTTTTCAGAT
49495868 TTTTATTTTTC-GAAT
1 TTTT-TTTTTCAG-AT
*
49495883 TTTTTTTTTGA-AT
1 TTTTTTTTTCAGAT
49495896 TTTTTTTT
1 TTTTTTTT
49495904 ACTTGTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.31
14 10 0.31
15 12 0.38
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTCAGAT
Found at i:49495889 original size:13 final size:13
Alignment explanation
Indices: 49495854--49495903 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
49495844 CATTAAACAC
*
49495854 TTTTTTTTTCAGAT
1 TTTTTTTTTC-GAA
49495868 TTTTATTTTTCGAA
1 TTTT-TTTTTCGAA
*
49495882 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
49495895 TTTTTTTTT
1 TTTTTTTTT
49495904 ACTTGTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 17 0.52
14 10 0.30
15 6 0.18
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:49497652 original size:30 final size:30
Alignment explanation
Indices: 49497618--49497714 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
49497608 TAAACTAAAA
49497618 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
49497648 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
49497678 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49497708 TGAGCTA
1 TGAGCTA
49497715 GGAGGGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49501835 original size:93 final size:93
Alignment explanation
Indices: 49501727--49501896 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
49501717 GCCCCTAAGT
* ** *
49501727 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
49501792 CGAGTTCGGATGTCTAGTTACATCTCAC
66 CGAGTTCGGATGTCTAGTTACATCTCAC
* * *
49501820 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
49501885 CGAGTTCGGATG
66 CGAGTTCGGATG
49501897 CTCAACCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGTCTAGTTACATCTCAC
Found at i:49501913 original size:46 final size:46
Alignment explanation
Indices: 49501722--49501894 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
49501712 AACCCGCCCC
* * *
49501722 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
49501768 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACATCCA
* * * * * *
49501816 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
49501861 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49501895 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCA
Found at i:49503990 original size:46 final size:45
Alignment explanation
Indices: 49503915--49504086 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
49503905 TGTAACCCGC
* *
49503915 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* *
49503961 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
49504011 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
49504054 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
49504087 TGGATGCTCA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:49504081 original size:93 final size:93
Alignment explanation
Indices: 49503922--49504093 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49503912 CGCCCATAAG
* * *
49503922 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49503987 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
49504015 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
49504080 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
49504094 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49506509 original size:15 final size:15
Alignment explanation
Indices: 49506480--49506529 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
49506470 CAAAGATAAT
*
49506480 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
49506494 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
49506509 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
49506524 AAGAAA
1 AAGAAA
49506530 CCCAAGATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49509241 original size:41 final size:41
Alignment explanation
Indices: 49509181--49509323 Score: 182
Period size: 40 Copynumber: 3.5 Consensus size: 41
49509171 GTTTCCGAGC
* * *
49509181 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTGAGTTACCAAAACCGGGT
*
49509222 TAAGTCCCGAAGGCATTTGTG-TGAGTTACCAAAATCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTGAGTTACCAAAACCGGGT
* * * *
49509262 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCTGAGTTACCAAAACCGGGT
* *
49509302 TAATTCCCGAAGGCAATTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
49509324 GAATCACTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
40 70 0.78
41 20 0.22
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCTGAGTTACCAAAACCGGGT
Found at i:49513509 original size:40 final size:40
Alignment explanation
Indices: 49513410--49513587 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
49513400 ATTCGAATGG
* * *
49513410 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49513451 TCCGGG-TAA-TCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49513489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
49513529 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49513570 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
49513588 ACAATCGAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
38 14 0.11
39 20 0.16
40 80 0.66
41 8 0.07
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49513608 original size:40 final size:40
Alignment explanation
Indices: 49513530--49513613 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
49513520 GTTACTAAAT
* * *
49513530 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
49513570 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
49513610 CCGG
1 CCGG
49513614 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:49513612 original size:80 final size:78
Alignment explanation
Indices: 49513445--49513627 Score: 188
Period size: 80 Copynumber: 2.3 Consensus size: 78
49513435 GTGCTAAGTG
* * * * *
49513445 ACTAAATCCGGGTAATCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGC
1 ACTAAATCCGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAATCCGGGCTAAGTCCCGAAGAC
* * * *
49513510 ATTTGTGCGAGTT
66 AATCGAGCGAGTC
* *
49513523 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGG-TAA-TCCCGAAGGCAATTGTGCGAATCACCA-AATCCGGGCTAAGTCCCGAA
49513587 GACAATCGAGCGAGTC
63 GACAATCGAGCGAGTC
* * * *
49513603 GCTATATCCGGTTAAATTCCGAAGG
1 ACTAAATCCGGGT-AATCCCGAAGG
49513628 TACGTGATTC
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 12 0.14
79 12 0.14
80 60 0.70
81 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (78 bp):
ACTAAATCCGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAATCCGGGCTAAGTCCCGAAGAC
AATCGAGCGAGTC
Found at i:49521614 original size:39 final size:40
Alignment explanation
Indices: 49521468--49521645 Score: 196
Period size: 40 Copynumber: 4.5 Consensus size: 40
49521458 TCGAATGGTT
* * *
49521468 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
*
49521509 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
49521549 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * * * * *
49521588 TCTGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
49521628 CCGGGCTATGTCTCGAAG
1 CCGGGCTAAGTCCCGAAG
49521646 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
39 31 0.27
40 59 0.51
41 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:49521632 original size:79 final size:81
Alignment explanation
Indices: 49521468--49521645 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 81
49521458 TCGAATGGTT
* * *
49521468 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGCTAAGTCCCGAAGGCAATT
* *
49521533 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * * * * * *
49521549 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTA-CTAAATCTGGCTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGCTAAGTCCCGAAGGCAATT
* *
49521612 GTGCGAATCACTATAA
66 GTGCGAATCACCAAAA
* *
49521628 CCGGGCTATGTCTCGAAG
1 CCGGGCTAAGTCCCGAAG
49521646 ACAATCGAGC
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 50 0.62
80 4 0.05
81 26 0.32
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAACCGGGCTAAGTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:49525169 original size:93 final size:93
Alignment explanation
Indices: 49525062--49525233 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49525052 CGCCCATAAG
* *
49525062 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
49525127 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
49525155 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
49525220 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49525234 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49525230 original size:46 final size:46
Alignment explanation
Indices: 49525055--49525230 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
49525045 TGTAACCCGC
* * *
49525055 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
49525101 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
49525151 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
49525194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49525231 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49533333 original size:93 final size:93
Alignment explanation
Indices: 49533174--49533344 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
49533164 GCCCCTAAGT
* *
49533174 GAACTCGGACTCAACTAAATGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTAAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49533239 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
49533267 GAACTCGGACTCAACTCAACGAGTTC-GAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTAAACGAGCTCAG-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49533331 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
49533345 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTAAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49533334 original size:46 final size:46
Alignment explanation
Indices: 49533167--49533339 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
49533157 GTAACCCGCC
* * * *
49533167 CCTAAGTGAACTCGGACTCAACTAAATGAGCTC-AGGCATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
* *
49533212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-A-TTCGCAT
* *
49533262 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGA-ACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
49533305 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
49533340 GATGCTCAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 57 0.53
47 26 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCGCAT
Found at i:49533360 original size:46 final size:46
Alignment explanation
Indices: 49533167--49533360 Score: 152
Period size: 46 Copynumber: 4.2 Consensus size: 46
49533157 GTAACCCGCC
* * * *
49533167 CCTAAGTGAACTCGGACTCAACTAAATGAGCTCAGGCAT--TC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACAT
49533212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * *** *
49533262 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
49533305 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
49533353 CCT-AGTGA
1 CCTAAGTGA
49533361 CATGTCACTT
Statistics
Matches: 117, Mismatches: 18, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 7 0.06
46 63 0.54
47 29 0.25
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:49535402 original size:27 final size:28
Alignment explanation
Indices: 49535333--49535403 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
49535323 GTATTGGTGA
*
49535333 CTATGTCACATTTACT-ATTACCAGTGG
1 CTATGCCACATTTACTGATTACCAGTGG
** **
49535360 CTATGCCACAAATACTGA-TACTGGTGG
1 CTATGCCACATTTACTGATTACCAGTGG
*
49535387 CTTTGCCACATTTACTG
1 CTATGCCACATTTACTG
49535404 TTCCTGGCAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (28 bp):
CTATGCCACATTTACTGATTACCAGTGG
Found at i:49535410 original size:27 final size:27
Alignment explanation
Indices: 49535327--49535419 Score: 71
Period size: 27 Copynumber: 3.4 Consensus size: 27
49535317 AGTACTGTAT
* * *
49535327 TGGTGACTATGTCACATTTACTATTACC
1 TGGTGGCTATGCCACATTTACTGTT-CC
* ** * *
49535355 -AGTGGCTATGCCACAAATACTGATAC
1 TGGTGGCTATGCCACATTTACTGTTCC
*
49535381 TGGTGGCTTTGCCACATTTACTGTTCC
1 TGGTGGCTATGCCACATTTACTGTTCC
**
49535408 TGGCAGCTATGC
1 TGGTGGCTATGC
49535420 TGTGTTATTA
Statistics
Matches: 47, Mismatches: 17, Indels: 3
0.70 0.25 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
TGGTGGCTATGCCACATTTACTGTTCC
Found at i:49536394 original size:42 final size:42
Alignment explanation
Indices: 49536348--49536496 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
49536338 TGAGTTTATG
* * *
49536348 TGTAAGACCATATCTGGGATATGGCATTGTTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATATCA
* * * * *
49536390 TGTAAGACCATGTATAGGATATGGCATCGGTATGAGA-ATCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATATCA
* * * * **
49536431 TGCAAGACCATAGCTGGGCTATTGCCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATATCA
*
49536474 TGTAAGACCATTTCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
49536497 ACATTGCTAT
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 17 0.20
42 48 0.58
43 18 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATATCA
Found at i:49536508 original size:84 final size:83
Alignment explanation
Indices: 49536351--49536508 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 83
49536341 GTTTATGTGT
* * * * ** *
49536351 AAGACCATATCTGGGATATGGCATTGTTATGAGATTTCATGTAAGACCATGTATAGGATATGGCA
1 AAGACCATAGCTGGGATATGCCATCGATATGAGATCCCATGTAAGACCATGTATAGGATATGACA
*
49536416 TCGGTATGAGAATCGTGC
66 TCGCTATGAGAATCGTGC
* * * *
49536434 AAGACCATAGCTGGGCTATTGCCATCGATATGAGATCCCATGTAAGACCATTTCTGGGATATGAC
1 AAGACCATAGCTGGGATA-TGCCATCGATATGAGATCCCATGTAAGACCATGTATAGGATATGAC
*
49536499 ATTGCTATGA
65 ATCGCTATGA
49536509 TTCTATGTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
83 16 0.26
84 45 0.74
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (83 bp):
AAGACCATAGCTGGGATATGCCATCGATATGAGATCCCATGTAAGACCATGTATAGGATATGACA
TCGCTATGAGAATCGTGC
Found at i:49543837 original size:16 final size:16
Alignment explanation
Indices: 49543813--49543847 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49543803 GTAGATCAAC
49543813 AAATCCCGAAAAGCCG
1 AAATCCCGAAAAGCCG
* *
49543829 AAATGCCGAAAAGTCG
1 AAATCCCGAAAAGCCG
49543845 AAA
1 AAA
49543848 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.20, T:0.09
Consensus pattern (16 bp):
AAATCCCGAAAAGCCG
Found at i:49549342 original size:46 final size:44
Alignment explanation
Indices: 49549275--49549447 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
49549265 TGTAACCCGC
*
49549275 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TT-GCAT
* *
49549321 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CTTGCAT
* *** * *
49549367 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTC-GACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTGCAT
*
49549412 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
49549448 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.27
45 6 0.06
46 41 0.39
47 26 0.25
48 2 0.02
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTGCAT
Done.